Hi all,

I am using RankProd package to select the differential expressed genes. Suppose the results of topGene as following:

$Table1
             gene.index  RP/Rsum FC:(class1/class2)    pfp P.value
205950_s_at       15398 324.8823             0.3597 0.0300       0
1553138_a_at        631 377.5625             0.4421 0.0250       0
213319_s_at       22621 396.9675             0.3594 0.0233       0

$Table2
             gene.index  RP/Rsum FC:(class1/class2)    pfp P.value
1556839_s_at       3270  81.8164             3.2141 0.0000       0
206371_at         15818 181.5498             2.8815 0.0050       0
204013_s_at       13461 232.3464             2.6452 0.0067       0
204351_at         13799 275.7640             2.6821 0.0050       0
210254_at         19655 343.9426             2.4630 0.0100       0
234798_x_at       44048 381.8130             2.4811 0.0150       0
206207_at         15654 390.8086             2.3477 0.0157       0
211682_x_at       21005 398.8338             2.3460 0.0138       0

Then I meet a problem to extract the probeset list separately from the  table.  It seems that the  probeset column always attach to the "gene.index" column and in  numeric format. For example:

> c(Topgene$Table1[,1],Topgene$Table2[,1])
205950_s_at 1553138_a_at  213319_s_at 1556839_s_at    206371_at  204013_s_at 
       15398          631        22621         3270        15818        13461 
   204351_at    210254_at  234798_x_at    206207_at  211682_x_at   1552348_at 
       13799        19655        44048        15654        21005           75 
> c(Topgene$Table1[,0],Topgene$Table2[,0])
numeric(0)

 Therefore, my problem is to extract the probeset list from the topGene table in character format.

Many thnaks!

Best regards
Qinghua





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